{"id":"https://openalex.org/W2725860115","doi":"https://doi.org/10.2312/vcbm.20161265","title":"Unfolding and Interactive Exploration of Protein Tunnels and their Dynamics","display_name":"Unfolding and Interactive Exploration of Protein Tunnels and their Dynamics","publication_year":2016,"publication_date":"2016-01-01","ids":{"openalex":"https://openalex.org/W2725860115","doi":"https://doi.org/10.2312/vcbm.20161265","mag":"2725860115"},"language":"en","primary_location":{"id":"doi:10.2312/vcbm.20161265","is_oa":true,"landing_page_url":"https://doi.org/10.2312/vcbm.20161265","pdf_url":null,"source":{"id":"https://openalex.org/S7407052899","display_name":"Eurographics","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},"type":"article","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.2312/vcbm.20161265","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006962854","display_name":"Ivan Koles\u00e1r","orcid":null},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":true,"raw_author_name":"Koles\u00e1r, Ivan","raw_affiliation_strings":["University of Bergen, Norway"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039343836","display_name":"Jan By\u0161ka","orcid":"https://orcid.org/0000-0001-9483-7562"},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]},{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["CZ","NO"],"is_corresponding":false,"raw_author_name":"Byska, Jan","raw_affiliation_strings":["University of Bergen, Norway and Masaryk University, Brno, Czech Republic#TAB#"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway and Masaryk University, Brno, Czech Republic#TAB#","institution_ids":["https://openalex.org/I21449261","https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025345988","display_name":"J\u00falius Parulek","orcid":null},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Parulek, Julius","raw_affiliation_strings":["University of Bergen, Norway"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000755776","display_name":"Helwig Hauser","orcid":"https://orcid.org/0000-0003-0395-3192"},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Hauser, Helwig","raw_affiliation_strings":["University of Bergen, Norway"],"affiliations":[{"raw_affiliation_string":"University of Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022022242","display_name":"Barbora Kozl\u00edkov\u00e1","orcid":"https://orcid.org/0000-0003-0045-0872"},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Kozl\u00edkov\u00e1, Barbora","raw_affiliation_strings":["Masaryk University. Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Masaryk University. Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5006962854"],"corresponding_institution_ids":["https://openalex.org/I4432739"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"10"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10799","display_name":"Data Visualization and Analytics","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12114","display_name":"Sensory Analysis and Statistical Methods","score":0.9344000220298767,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13398","display_name":"Data Analysis with R","score":0.9253000020980835,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7666572332382202},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.648837149143219},{"id":"https://openalex.org/keywords/usability","display_name":"Usability","score":0.6246222853660583},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.5540267825126648},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.482565313577652},{"id":"https://openalex.org/keywords/outlier","display_name":"Outlier","score":0.4645497500896454},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.41526004672050476},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4149243235588074},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.3807128667831421},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.35773229598999023},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3216986656188965},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.28308141231536865},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.0831863284111023}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7666572332382202},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.648837149143219},{"id":"https://openalex.org/C170130773","wikidata":"https://www.wikidata.org/wiki/Q216378","display_name":"Usability","level":2,"score":0.6246222853660583},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.5540267825126648},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.482565313577652},{"id":"https://openalex.org/C79337645","wikidata":"https://www.wikidata.org/wiki/Q779824","display_name":"Outlier","level":2,"score":0.4645497500896454},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.41526004672050476},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4149243235588074},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.3807128667831421},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.35773229598999023},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3216986656188965},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.28308141231536865},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0831863284111023},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.2312/vcbm.20161265","is_oa":true,"landing_page_url":"https://doi.org/10.2312/vcbm.20161265","pdf_url":null,"source":{"id":"https://openalex.org/S7407052899","display_name":"Eurographics","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"mag:2725860115","is_oa":false,"landing_page_url":"http://dblp.uni-trier.de/db/conf/vcbm/vcbm2016.html#KolesarBPHK16","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":"Eurographics","raw_type":null}],"best_oa_location":{"id":"doi:10.2312/vcbm.20161265","is_oa":true,"landing_page_url":"https://doi.org/10.2312/vcbm.20161265","pdf_url":null,"source":{"id":"https://openalex.org/S7407052899","display_name":"Eurographics","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W358380361","https://openalex.org/W1879416943","https://openalex.org/W1939177925","https://openalex.org/W1974635207","https://openalex.org/W1987619816","https://openalex.org/W1993623134","https://openalex.org/W1999021920","https://openalex.org/W2009647363","https://openalex.org/W2011711938","https://openalex.org/W2019951137","https://openalex.org/W2030246490","https://openalex.org/W2034526679","https://openalex.org/W2052321311","https://openalex.org/W2105464873","https://openalex.org/W2113085766","https://openalex.org/W2114784448","https://openalex.org/W2119317961","https://openalex.org/W2127218421","https://openalex.org/W2128934301","https://openalex.org/W2131080603","https://openalex.org/W2138786271","https://openalex.org/W2141069751","https://openalex.org/W2145247721","https://openalex.org/W2155758860","https://openalex.org/W2159181935","https://openalex.org/W2160715766","https://openalex.org/W2169242540","https://openalex.org/W2169945149","https://openalex.org/W2171750292","https://openalex.org/W2187089797","https://openalex.org/W2216548985","https://openalex.org/W2234920829","https://openalex.org/W2346080947","https://openalex.org/W2467187082"],"related_works":["https://openalex.org/W2750772276","https://openalex.org/W2952949761","https://openalex.org/W588983144","https://openalex.org/W2152935971","https://openalex.org/W1185605821","https://openalex.org/W2751533416","https://openalex.org/W2077197747","https://openalex.org/W3015798859","https://openalex.org/W2890117963","https://openalex.org/W166050199","https://openalex.org/W1994780358","https://openalex.org/W1803344800","https://openalex.org/W2108504239","https://openalex.org/W2969869240","https://openalex.org/W3092143251","https://openalex.org/W3092481679","https://openalex.org/W2803713754","https://openalex.org/W2138516914","https://openalex.org/W2111921753","https://openalex.org/W2109584093"],"abstract_inverted_index":{"The":[0,144,196],"presence":[1],"of":[2,27,45,47,94,104,160,175,198],"tunnels":[3,83,178],"in":[4,24,119,132,140,150,184],"protein":[5],"structures":[6],"substantially":[7],"influences":[8],"their":[9,16],"reactivity":[10],"with":[11,56],"other":[12],"molecules.":[13],"Therefore,":[14],"studying":[15],"properties":[17],"and":[18,43,72,101,130,191],"changes":[19],"over":[20,164],"time":[21],"has":[22],"been":[23],"the":[25,40,69,81,91,98,102,133,151,158,161,187],"scope":[26],"biochemists":[28],"for":[29,39],"decades.":[30],"In":[31],"this":[32],"paper":[33],"we":[34,79,124],"introduce":[35],"a":[36,63,85,141,169,173],"novel":[37],"approach":[38,200],"comparative":[41],"visualization":[42],"exploration":[44],"ensembles":[46],"tunnels.":[48,77],"Our":[49],"goal":[50],"is":[51,148,201],"to":[52,66,73,84,89,127,156,171],"overcome":[53],"occlusion":[54],"problems":[55],"traditional":[57,193],"tunnel":[58,99],"representations":[59],"while":[60],"providing":[61],"users":[62],"quick":[64],"way":[65,123,170],"navigate":[67],"through":[68],"input":[70,82],"dataset":[71],"identify":[74],"potentially":[75,176],"interesting":[76,177],"First,":[78],"unfold":[80],"2D":[86,109,188],"representation":[87],"enabling":[88,155],"observe":[90],"mutual":[92],"position":[93,159],"amino":[95],"acids":[96],"forming":[97],"surface":[100,105],"amount":[103],"they":[106],"influence.":[107],"These":[108,166],"images":[110],"are":[111,125,136],"subsequently":[112],"described":[113],"by":[114,203,207],"image":[115,120],"moments":[116],"commonly":[117],"used":[118,149],"processing.":[121],"This":[122],"able":[126],"detect":[128,157],"similarities":[129],"outliers":[131],"dataset,":[134],"which":[135],"visualized":[137],"as":[138],"clusters":[139],"scatterplot":[142],"graph.":[143],"same":[145],"coloring":[146],"scheme":[147],"linked":[152],"bar":[153],"chart":[154],"cluster":[162],"members":[163],"time.":[165],"views":[167],"provide":[168],"select":[172],"subset":[174],"that":[179],"can":[180],"be":[181],"further":[182],"explored":[183],"detail":[185],"using":[186],"unfolded":[189],"view":[190],"also":[192],"3D":[194],"representation.":[195],"usability":[197],"our":[199],"demonstrated":[202],"case":[204],"studies":[205],"conducted":[206],"domain":[208],"experts.":[209]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
